Thermo Scientific UVPD Module User Guide vii
Figure 1. Approximate location of the UVPD laser module inside the Orbitrap Fusion
Lumos MS . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2
Figure 2. UVPD scan parameters in the Tune application . . . . . . . . . . . . . . . . . . . . . . . . . 3
Figure 3. Laser module . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6
Figure 4. Complementary pairs of micrometers (front view) . . . . . . . . . . . . . . . . . . . . . . . . 7
Figure 5. Mirror assemblies behind the laser beam protective housing . . . . . . . . . . . . . . . . 7
Figure 6. Micrometer locking thumbscrew and graduation markings . . . . . . . . . . . . . . . . . 8
Figure 7. Controller module . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 8
Figure 8. Example of optimal UVPD efficiency and AQS . . . . . . . . . . . . . . . . . . . . . . . . . 10
Figure 9. Laser beam paths after adjusting one or more micrometers . . . . . . . . . . . . . . . . 11
Figure 10. Laser beam (blue) overlap with an ion cloud (green) in the ion trap . . . . . . . . . . 12
Figure 11. Examples of optimal and poor UVPD efficiency (level laser beam through
the trap) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12
Figure 12. Examples of optimal and poor UVPD efficiency (angled laser beam through
the trap) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 13
Figure 13. Laser Alignment calibration displays (percentage of precursor fragmentation
and AQS) . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 16
Figure 14. Plot of the precursor decay rate in the ion trap’s low-pressure cell . . . . . . . . . . . 17
Figure 15. Plot of the UVPD reaction time for the caffeine precursor . . . . . . . . . . . . . . . . . 17
Figure 16. Plot of the UVPD alignment quality check . . . . . . . . . . . . . . . . . . . . . . . . . . . . 18
Figure 17. Plot of the UVPD fragmentation efficiency check . . . . . . . . . . . . . . . . . . . . . . . 18
Figure 18. UVPD check calibration procedures . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 19
Figure 19. UVPD calibration procedures. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 20
Figure 20. Laser module compartment with door removed . . . . . . . . . . . . . . . . . . . . . . . . 21
Figure 21. Syringe pump settings box . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 26
Figure 22. Define Scan pane showing the scan parameters for optimizing the ion source. . . 27
Figure 23. RSD results for spray stability when optimizing the ion source parameters . . . . 28
Figure 24. Full MS scan spectrum of the enfuvirtide solution (profile mode) . . . . . . . . . . . 29
Figure 25. Define Scan pane showing the scan parameters for the UVPD experiment . . . . 30
Figure 26. MS2 scan spectrum of the enfuvirtide solution (profile mode) . . . . . . . . . . . . . . 31
Figure 27. Location of the laser safety label on the Orbitrap Fusion Lumos MS with the
UVPD option . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 34
Figure 28. Laser safety label for the Orbitrap Fusion Lumos MS with the UVPD option . . 34
Figure 29. Internal laser safety label (on and behind the laser beam protective housing) . . . 35
Figure 30. Laser head’s Class 4 laser safety label . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 35
Figures